Input and Output Files

The configuration of an individual run is specified in a number of files which Cosmos reads when the run commences. These files contain details of non-default parameter settings, of the mapping between instructions in the REPLiCa programming language and the binary encoding used to represent them in a cell's genome, and of user-defined ancestor programs. Full details of these input files are given in Section A.5.1.

The core Cosmos system is a stand-alone application. In order to allow the analysis of an evolutionary run, a number of log files containing information about the different organisms are written by the system during the run. The files may then be used to produce graphs and statistics about the run. These output files are described in Section A.5.2.